RetrogeneDB ID:

retro_mmur_451

Retrocopy
location
Organism:Mouse Lemur (Microcebus murinus)
Coordinates:GeneScaffold_3217:786649..788757(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MTHFD1
Ensembl ID:ENSMICG00000013011
Aliases:None
Description:methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1, methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate synthetase [Source:HGNC Symbol;Acc:7432]


Retrocopy-Parental alignment summary:






>retro_mmur_451
AATCTTTATATAAATGTGAAGCTGAAGGCTGCTGAAGAGGTTGGGATCAAAGCCACTCACATTAAATTACCAAGAACAGC
CACAGAATCTGAGGTGTTAAAGTACATTAGATCTTTGAATGAAGACTCTACTGTACATGGATTGATACTGCAGCTGCCTT
TAGATTCAGAAAATGCTATTAACACTGAAGCAGTGATCAATGCTACGCACCCGAAAAGGATGTGGATGGATTGACTAGTA
TCAGTGCTGGGAAACTCGCTAGAGGTGACCTAAATGACTGTTTCATCCCTTGTATGCCTAAAGGATGCTTGGAACTCATC
AAAGAGACAGGGGTGCAGATCACCGGAAAGTGCGCCGTGGTGGTCGGGTGCAGTAAAATAGTAGGAGCCCCAATGCATGA
CTTGCTTCTGTGGAACAATGCCACAGTGACCACCTGCCACTCCAAGACTGCCAGTCTGGGCCAGGAGGTAAATAAAGGTG
ACATCCTGGTGGTTGCAACTGGTCAGCCTGAAATGTGAAAGGAGAGTGATCAAACTGGGGGGCATAGTCATCGACTGTGG
GACCAATTATGTCCCAGATGATACAAAATCAAATGGGAGAAGGATCGTGGGTGATGTGGCATAAAACGGGGCCAAAGAGC
GGGCGGGCTTCATCCCTCCTGTTCCTGGCGACGTCGGGCCCATGACGGTGGCCATGCTGATGCAGGGCACGGTAGAGAGC
GCAAGGGGTTTCCTGGAGAAATACAAGCCAGGAAAGTATTAACCTTAAGTATTAAAATTAACCTGAAGACACCTGTTCCA
AGTGACATTGCTATATCACGATCTTGCAAACCAAAGCCCATTGGTACGCTGGCTCGAGAAATTGGCCTGTTCTCTGAAGA
GGTGGAATCGTATGGTGAGACAAAGGCCAAAGTCCTGCCATCAGCACTGGAACGCCTGAAACGCCAGCCTGACGGGAAAT
ACGTGGTGGTGACTGGAGTAACTCCAGCTCCCCTGGGAGAGGGGGAAATACAACCACAGTCGGGCTGGTGCAAGCCCAGG
ACGTCTTCGCGTGTGTGCGACAGCCTTCCCAGGGCCCCACCTTTGGAATAAAAGGTGGTGCTGCAGGAGGCGGCTACTCC
CAGGTCATTCCTACGGAAGAGTTTAATCTCCACCTCACTGGTGACATCCATGCCATCACTGCAGCTAATAACCCGGTTGC
TGCGGCCACTGATGCCCGGATATTGCATGAACTGACCCAGACAGACAAGGCTCTCTTTAATCGTTTGGTGCCCTCAGTAA
ATGGAGTGAGAAAGTTCTCTGACATCCAAATCCAAAGGTTAAGGAGACCAGGCATTGAAAAGACTGACCCTACCACACTG
ACAGACGAAGAGATACACAGATTTGCAAGACTGGATATTGATCCAGAAACCATAACTTGGCAAAGAGTGTTGGATACCAA
TGATAGATTCCTGCAGAAGATCACAATTGGACAGGCTCCAATGGAGAAAGGGAACACACGGATGACCCATTTTGATATCT
CAGTGGCCAGTGCGATCATGGCTGTCCTGGCCCTCACCAGTTCTCTGGAAGACATGAGAGAGAGACTGGACAAAACGGTG
GTGGCCTCCAGCAAGAAAGGGGAGCCCATCAGTGCCGAAGACCTGGGGGTGGGTGGCGCGTTGACAGTGCTTATGAAGGA
CGCGATCAAGCCTAACCTCATGCAGGTGTTAGAGAGCACTCCGGTGGTTTGTCCACGCCGACCCATTTGCCAACATTGCA
CACGGGAATTCGTCTATCATCACAGACCAGGGCGCACTTAAGCTTATCGGCCCAGAAGGGTTTGTAGTGACCGAAGCCAG
ATTCGGAGCAGACATTGGAATGGAAAAGTTTCTTAACATCAAATGCCGGTACTCTGGCCTCCGCCCTCACGTGGTGGTGC
TCGTTGCTACTGTCAGGGCTCTTAAAATGCACGGGGGCAGCCCCACGGTCACCGCTGGACTGCCTCTTCCCAAGGCTTAC
AGAGAGGAGAATCTGGAGCTGGTTGAAAAAGTCTTCAGTAACTTGAAGAAACAAATTGAAAATGCCAGGATGTTTGGAGT
TCCAGTTGTAGTGGCTGTGAATGCGTTC

ORF - retro_mmur_451 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.92 %
Parental protein coverage: 78.32 %
Number of stop codons detected: 1
Number of frameshifts detected 6


Retrocopy - Parental Gene Alignment:

ParentalNLYINVKLKAAEEVGIKATHVKLPRTATESEV-KYIRSL-EDSTIHGFILQLPLDSENAINTEAVINAI-
NLYINVKLKAAEEVGIKATH.KLPRTATESEV.KYIRSL.EDST.HG.ILQLPLDSENAINTEAVINA..
RetrocopyNLYINVKLKAAEEVGIKATHIKLPRTATESEVLKYIRSLNEDSTVHGLILQLPLDSENAINTEAVINAT<
ParentalAPEKDVDGLTSISAGKLSRGDLNDCFIPCTPKGCLELIKETGVQIAGKHAVVVGRSKIVGAPMHDLLLWN
APEKDVDGLTSISAGKL.RGDLNDCFIPC.PKGCLELIKETGVQI.GK.AVVVG.SKIVGAPMHDLLLWN
RetrocopyAPEKDVDGLTSISAGKLARGDLNDCFIPCMPKGCLELIKETGVQITGKCAVVVGCSKIVGAPMHDLLLWN
ParentalNATVTTCHSKTANLGEEVNKGDILVVATGQPEM-VKGE-WIKPGAIVIDCGINYIPDNTKSNGRRIVGDV
NATVTTCHSKTA.LG.EVNKGDILVVATGQPEM.VKGE..IK.G.IVIDCG.NY.PD.TKSNGRRIVGDV
RetrocopyNATVTTCHSKTASLGQEVNKGDILVVATGQPEM<VKGE<VIKLGGIVIDCGTNYVPDDTKSNGRRIVGDV
ParentalAYNEAKERAGFITPVPGGVGPMTVAMLMQSTVESAR-GFLEKYKPGKWSIQYNNLNLKTPVPSDIAISRS
A.N.AKERAGFI.PVPG.VGPMTVAMLMQ.TVESAR.GF.......K........NLKTPVPSDIAISRS
RetrocopyA*NGAKERAGFIPPVPGDVGPMTVAMLMQGTVESAR<GFPGEIQARKVLTLSIKINLKTPVPSDIAISRS
ParentalCKLKPIGTLAREIGLLSEEVELYGETKAKVLLSALERLKHQPDGKYVVVTGITPTPLGEGK-STTTIGLV
CK.KPIGTLAREIGL.SEEVE.YGETKAKVL.SALERLK.QPDGKYVVVTG.TP.PLGEG...TTT.GLV
RetrocopyCKPKPIGTLAREIGLFSEEVESYGETKAKVLPSALERLKRQPDGKYVVVTGVTPAPLGEGE<NTTTVGLV
ParentalQALGAHLFQNVFACVRQPSQGPTFGIKGGAAGGGYSQVIPMEEFNLHLTGDIHAITAANNLVAAAIDARI
QA.....F..V......P..G...G..GG....GYSQVIP.EEFNLHLTGDIHAITAANN.VAAA.DARI
RetrocopyQA--QDVFACVRQPSQGPTFGIKGGAAGG----GYSQVIPTEEFNLHLTGDIHAITAANNPVAAATDARI
ParentalFHELTQTDKALFNRLVPSVNGVRKFSDIQIRRLRRLGIEKTDPTTLTDEEINRFARLDIDPETITWQRVL
.HELTQTDKALFNRLVPSVNGVRKFSDIQI.RLRR.GIEKTDPTTLTDEEI.RFARLDIDPETITWQRVL
RetrocopyLHELTQTDKALFNRLVPSVNGVRKFSDIQIQRLRRPGIEKTDPTTLTDEEIHRFARLDIDPETITWQRVL
ParentalDTNDRFLRKITIGQAPTEKGHTRTTQFDISVASEIMAVLALTSSLEDMRERLGKMVVASSKKGEPISAED
DTNDRFL.KITIGQAP.EKG.TR.T.FDISVAS.IMAVLALTSSLEDMRERL.K.VVASSKKGEPISAED
RetrocopyDTNDRFLQKITIGQAPMEKGNTRMTHFDISVASAIMAVLALTSSLEDMRERLDKTVVASSKKGEPISAED
ParentalLGVSGALTVLMKDAIKPNLMQTLEGTPV-FVHAGPFANIAHGNSSIIADRVALKLVGPEGFVVTEAGFGA
LGV.GALTVLMKDAIKPNLMQ.LE.TPV.FVHA.PFANIAHGNSSII.D..ALKL.GPEGFVVTEA.FGA
RetrocopyLGVGGALTVLMKDAIKPNLMQVLESTPV>FVHADPFANIAHGNSSIITDQGALKLIGPEGFVVTEARFGA
ParentalDIGMEKFFNIKCRYSGLRPHVVVLVATVRALKMHGGGPTVTAGLPLPKAYIEENLELVEKGFSNLKKQIE
DIGMEKF.NIKCRYSGLRPHVVVLVATVRALKMHGG.PTVTAGLPLPKAY.EENLELVEK.FSNLKKQIE
RetrocopyDIGMEKFLNIKCRYSGLRPHVVVLVATVRALKMHGGSPTVTAGLPLPKAYREENLELVEKVFSNLKKQIE
ParentalNARMFGVPVVVAVNVF
NARMFGVPVVVAVN.F
RetrocopyNARMFGVPVVVAVNAF

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Microcebus murinus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmur_451 retrocopy.

TSS - click to see more details

Microcebus murinus was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmur_451 was not experimentally validated.

Retrocopy orthology:
Microcebus murinus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.
Parental genes homology:
Parental genes homology involve 6 parental genes, and 11 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000159671 retrocopy
retro_cfam_300,
Homo sapiens ENSG000001007141 retrocopy
retro_hsap_4839,
Gorilla gorilla ENSGGOG000000052511 retrocopy
retro_ggor_3018,
Microcebus murinus ENSMICG00000013011 6 retrocopies
retro_mmur_1069, retro_mmur_1250, retro_mmur_1462, retro_mmur_451 , retro_mmur_777, retro_mmur_993,
Macaca mulatta ENSMMUG000000013191 retrocopy
retro_mmul_2583,
Pan troglodytes ENSPTRG000000064351 retrocopy
retro_ptro_3223,


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